Dna
Phylogenetic relationships of Pseudohynobius (Urodela, Hynobiidae) inferred from DNA barcoding analysis
Authors: Y.-Y. Zhao, L.-N. Su, Z.-M. Zhang and X.-Y. Wang
As a proven tool, DNA barcoding can identify species rapidly and unambiguously. In this study, we used mtDNA cyt b, COI, and 16s rRNA sequences of six species of Pseudohynobius, Protohynobius puxiongensis, Liua shihi, Ranodon sibiricus, and Pachyhynobius shangchengensis, to reconstruct the phylogenetic relationships using Baye.. Read More»
- Genet. Mol. Res. 15(2):
- gmr.15028155
- DOI:
- 10.4238/gmr.15028155
Correlation between hepatitis B virus DNA levels and diagnostic tests for HBsAg, HBeAg, and PreS1-Ag in chronic hepatitis B
Authors: X. Liu, J.M. Chen, J.L. Lou, Y.X. Huang, Y. Yan, G.Z. Sun and N. Li
he aim of this study was to investigate the diagnostic value of the serum markers HBsAg and HBeAg and PreS1 protein (PreS1-Ag) in quantifying the levels of hepatitis B virus (HBV) DNA in patients with chronic hepatitis B (CHB). One thousand CHB patients were recruited from Beijing You’an Hospital between June and Decembe.. Read More»
- Genet. Mol. Res. 15(2):
Deciphering the spectrum of somatic mutations in the entire mitochondrial DNA genome
Authors: X.Z. Chen, Y. Fang, Y.H. Shi, J.H. Cui, L.Y. Li, Y.C. Xu and B. Ling
The mitochondrion is a crucial intracellular organelle responsible for regulating cellular energy metabolism, producing free radicals, initiating and executing the apoptotic pathways. Previous studies have shown that somatic mutations in mitochondrial DNA are associated with various tumors, which may be involved during carcinogenesis and tumor progression.. Read More»
- Genet. Mol. Res. 14(2):
- http://dx.doi.org/2015.April.30.5
- DOI:
- http://dx.doi.org/10.4238/2015.April.30.5
Glucocorticoid receptor gene (NR3C1) promoter is hypermethylated in Thai females with major depressive disorder
Authors: M. Nantharat, T. Wanitchanon, M. Amesbutr, R. Tammachote and V. Praphanphoj
Major depressive disorder (MDD) has been associated with the stress response in the brain, which is controlled by the hypothalamic-pituitary-adrenal (HPA) axis. This HPA negative feedback mechanism acts via the activation of glucocorticoid receptor, which is encoded by the NR3C1 gene. The methylation status at the promoter of NR3C1 has been correlated wit.. Read More»
- Genet. Mol. Res. 14(4):
- 2015.December.29.15
- DOI:
- 10.4238/2015.December.29.15
An efficient method for simultaneous extraction of high-quality RNA and DNA from various plant tissues
Authors: R.R. Oliveira, A.J.C. Viana, A.C.E. Re�¡tegui and M.G.A. Vincentz
Determination of gene expression is an important tool to study biological processes and relies on the quality of the extracted RNA. Changes in gene expression profiles may be directly related to mutations in regulatory DNA sequences or alterations in DNA cytosine methylation, which is an epigenetic mark. Correlation of gene expression with DNA sequence or.. Read More»
- Genet. Mol. Res. 14(4):
- 2015.December.28.32
- DOI:
- 10.4238/2015.December.28.32
Analysis of specific sequences in mutant rice generated by introduction of exogenous corn DNA
Authors: W.C. Li, S.D. Ji, C.Z. Tian, Z.K. Li, X.C. Wang, H.C. Zhang, Y.L. Sun, X.Z. Shi, T.X. Wang and J.Y. Li
Rice variation induced by the introduction of exogenous DNA has become an important method of improving rice varieties and creating new germplasms. In this study, we transferred maize genomic DNA fragments to the receptor of Nipponbare rice using a modified “pollen-tube pathway” method. Material from mutant rice B1 and B2 were acquired and 14 .. Read More»
- Genet. Mol. Res. 14(4):
- 2015.December.29.5
- DOI:
- 10.4238/2015.December.29.5
A wavelet-based feature vector model for DNA clustering
Authors: J.P. Bao and R.Y. Yuan
DNA data are important in the bioinformatic domain. To extract useful information from the enormous collection of DNA sequences, DNA clustering is often adopted to efficiently deal with DNA data. The alignment-free method is a very popular way of creating feature vectors from DNA sequences, which are then used to compare DNA similarities. This paper propo.. Read More»
- Genet. Mol. Res. 14(4):
- 2015.December.29.26
- DOI:
- 10.4238/2015.December.29.26
Identification and complete sequencing of novel human transcripts through the use of mouse orthologs and testis cDNA sequences
Authors: Elisa N. Ferreira, Lilian C. Pires, Raphael B. Parmigiani,Fabiana Bettoni, Renato D. Puga, Daniel G. Pinheiro,LuÃ?Âs Eduardo C. Andrade, Luciana O. Cruz, Theri L. Degaki,Milton Faria Jr., Fernanda Festa, Daniel Giannella-Neto,Ricardo R. Giorgi, Gustavo H. Goldman, Fabiana Granja,Arthur Gruber, Christine Hackel, FlÃ?¡vio Henrique-Silva,Bettina Malnic, Carina V.B. Manzini, Suely K.N. Marie14,Nilce M. Martinez-Rossi15, Sueli M. Oba-Shinjo14,Maria Ines M.C. Pardini16, Paula Rahal18, ClÃ?¡udia A.Rainho,Silvia R. Rogatto, Camila M. Romano, Vanderlei Rodrigues,Magaly M. Sales, Marcela Savoldi8, Ismael D.C.G. da Silva,Neusa P. da Silva, Sandro J. de Souza, Eloiza H. Tajara,Wilson A. Silva Jr, Andrew J.G. Simpson, Mari C. Sogayar,Anamaria A. Camargo and Dirce M. Carraro
The correct identification of all human genes, and their derived transcripts, has not yet been achieved, and it remains one of the major aims of the worldwide genomics community. Computational programs suggest the existence of 30,000 to 40,000 human genes. However, definitive gene identification can only be achieved by experim.. Read More»
- Genet. Mol. Res. 3(4):
Evaluation of window cohabitation of DNA sequencing errors and lowest PHRED quality values
Authors: Francisco Prosdocimi, Fabiano Cruz Peixoto and Jos�© Miguel Ortega
When analyzing sequencing reads, it is important to distinguish between putative correct and wrong bases. An open question is how a PHRED quality value is capable of identifying the miscalled bases and if there is a quality cutoff that allows mapping of most errors. Considering the fact that a low quality value does not necess.. Read More»
- Genet. Mol. Res. 3(4):
VSQual: a visual system to assist DNA sequencing quality control
Authors: Eliseu Binneck, Jo�£o Fl�¡vio V. Silva, Norman Neumaier,Jos�© Renato B. Farias and Alexandre L. Nepomuceno
A lack of pliant software tools that support small- to medium-scale DNA sequencing efforts is a major hindrance for recording and using laboratory workflow information to monitor the overall quality of data production. Here we describe VSQual, a set of Perl programs intended to provide simple and powerful tools to check severa.. Read More»
- Genet. Mol. Res. 3(4):